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LHFP (lipoma HMGIC fusion partner)

Written2005-01Marleen Petit
Laboratory for Molecular Oncology, Department of Human Genetics, University of Leuven (K.U.Leuven) & VIB, Herestraat 49, B-3000 Leuven, Belgium

(Note : for Links provided by Atlas : click)


Alias_symbol (synonym)MGC22429
Other alias
LocusID (NCBI) 10186
Atlas_Id 248
Location 13q13.3  [Link to chromosome band 13q13]
Location_base_pair Starts at 39342892 and ends at 39603219 bp from pter ( according to hg19-Feb_2009)  [Mapping LHFP.png]
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)


Description Exon-intron structure not described.
Transcription mRNA: ubiquitously: 2.4 kb; The ATG start codon is immediately preceded by an in-frame stop codon, and matches the most important positions of the Kozak consensus sequence; the 3'-UTR contains a CA-repeat.
Pseudogene No pseudogenes according to


  200 amino acids.
Description Database searches with the predicted LHFP amino acid sequences revealed no significant similarity to any known gene or protein or any known protein motif.
Expression Not known.
Localisation Not known.
Function Not known.
Homology LHFP is a member of a family of proteins, which contains 6 members: LHFP, LHFPL1, LHFPL2, LHFPL3, LHFPL4, LHFPL5.


Somatic HMGA2/LHFP fusion gene encoding the three DNA-binding domains of HMGA2 followed by 69 amino acids encoded by frame-shifted LHFP sequences.

Implicated in

Entity Solitary lipomas.
Disease Benign tumors of adipose tissue
Prognosis Can be surgically removed with no recurrence in most cases.
Cytogenetics More than 60% of solitary lipomas have an aberrant karyotype: 2/3 of these carry 12q15 rearrangements, most often translocations, affecting the HMGA2 gene:
  • 1/4 of the latter have chromosomal region 3q27-q28 (containing LPP) as 12q15 translocation partner (creating a HMGA2/LPP fusion gene).
  • In the 3/4 others, multiple chromosomes have been found as translocation partner of 12q15, one of these being chromosomal region 13q12 (containing, amongst others, the LHFP gene).
  • Hybrid/Mutated Gene HMGA2/LHFP hybrid gene containing the first three exons of HMGA2, which are followed by exon(s) of LHFP; under the regulation of the HMGA2 promoter.
    Abnormal Protein No known LHFP fusion protein. (HMGA2/LHFP fusion transcripts encode the three DNA-binding domains of HMGA2 followed by 69 amino acids encoded by frame-shifted LHFP sequences).


    Clustering of deletions on chromosome 13 in benign and low-malignant lipomatous tumors.
    Dahlén A, Debiec-Rychter M, Pedeutour F, Domanski HA, Höglund M, Bauer HC, Rydholm A, Sciot R, Mandahl N, Mertens F
    International journal of cancer. Journal international du cancer. 2003 ; 103 (5) : 616-623.
    PMID 12494468
    LHFP, a novel translocation partner gene of HMGIC in a lipoma, is a member of a new family of LHFP-like genes.
    Petit MM, Schoenmakers EF, Huysmans C, Geurts JM, Mandahl N, Van de Ven WJ
    Genomics. 1999 ; 57 (3) : 438-441.
    PMID 10329012
    Absence of HMGIC-LHFP fusion in pulmonary chondroid hamartomas with aberrations involving chromosomal regions 12q13 through 15 and 13q12 through q14.
    Rogalla P, Lemke I, Bullerdiek J
    Cancer genetics and cytogenetics. 2002 ; 133 (1) : 90-93.
    PMID 11890997


    This paper should be referenced as such :
    Petit, MM
    LHFP (lipoma HMGIC fusion partner)
    Atlas Genet Cytogenet Oncol Haematol. 2005;9(1):17-18.
    Free journal version : [ pdf ]   [ DOI ]
    On line version :

    Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 3 ]
      Soft Tissues: Lipoma / benign lipomatous tumors
    Soft Tissues: Ordinary lipoma with t(1;12)(p32;q14) HMGA2/PPAP2B
    Soft tissue tumors: an overview

    External links

    HGNC (Hugo)LHFP   6586
    Entrez_Gene (NCBI)LHFP  10186  lipoma HMGIC fusion partner
    GeneCards (Weizmann)LHFP
    Ensembl hg19 (Hinxton)ENSG00000183722 [Gene_View]
    Ensembl hg38 (Hinxton)ENSG00000183722 [Gene_View]  chr13:39342892-39603219 [Contig_View]  LHFP [Vega]
    ICGC DataPortalENSG00000183722
    TCGA cBioPortalLHFP
    AceView (NCBI)LHFP
    Genatlas (Paris)LHFP
    SOURCE (Princeton)LHFP
    Genetics Home Reference (NIH)LHFP
    Genomic and cartography
    GoldenPath hg38 (UCSC)LHFP  -     chr13:39342892-39603219 -  13q13.3-q14.11   [Description]    (hg38-Dec_2013)
    GoldenPath hg19 (UCSC)LHFP  -     13q13.3-q14.11   [Description]    (hg19-Feb_2009)
    EnsemblLHFP - 13q13.3-q14.11 [CytoView hg19]  LHFP - 13q13.3-q14.11 [CytoView hg38]
    Mapping of homologs : NCBILHFP [Mapview hg19]  LHFP [Mapview hg38]
    Gene and transcription
    Genbank (Entrez)AF098807 AK129819 AK223369 AK313036 AL137388
    RefSeq transcript (Entrez)NM_005780
    RefSeq genomic (Entrez)
    Consensus coding sequences : CCDS (NCBI)LHFP
    Cluster EST : UnigeneHs.507798 [ NCBI ]
    CGAP (NCI)Hs.507798
    Alternative Splicing GalleryENSG00000183722
    Gene ExpressionLHFP [ NCBI-GEO ]   LHFP [ EBI - ARRAY_EXPRESS ]   LHFP [ SEEK ]   LHFP [ MEM ]
    Gene Expression Viewer (FireBrowse)LHFP [ Firebrowse - Broad ]
    SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
    GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
    BioGPS (Tissue expression)10186
    GTEX Portal (Tissue expression)LHFP
    Human Protein AtlasENSG00000183722-LHFP [pathology]   [cell]   [tissue]
    Protein : pattern, domain, 3D structure
    UniProt/SwissProtQ9Y693   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
    NextProtQ9Y693  [Sequence]  [Exons]  [Medical]  [Publications]
    With graphics : InterProQ9Y693
    Splice isoforms : SwissVarQ9Y693
    Domains : Interpro (EBI)Lipome_HGMIC_fus_partner-like   
    Domain families : Pfam (Sanger)L_HMGIC_fpl (PF10242)   
    Domain families : Pfam (NCBI)pfam10242   
    Conserved Domain (NCBI)LHFP
    DMDM Disease mutations10186
    Blocks (Seattle)LHFP
    Human Protein Atlas [tissue]ENSG00000183722-LHFP [tissue]
    Peptide AtlasQ9Y693
    Protein Interaction databases
    DIP (DOE-UCLA)Q9Y693
    IntAct (EBI)Q9Y693
    Ontologies - Pathways
    Ontology : AmiGODNA binding  integral component of membrane  
    Ontology : EGO-EBIDNA binding  integral component of membrane  
    NDEx NetworkLHFP
    Atlas of Cancer Signalling NetworkLHFP
    Wikipedia pathwaysLHFP
    Orthology - Evolution
    GeneTree (enSembl)ENSG00000183722
    Phylogenetic Trees/Animal Genes : TreeFamLHFP
    Homologs : HomoloGeneLHFP
    Homology/Alignments : Family Browser (UCSC)LHFP
    Gene fusions - Rearrangements
    Fusion : MitelmanCOG6/LHFP [13q14.11/13q13.3]  [t(13;13)(q13;q14)]  
    Fusion : MitelmanHMGA2/LHFP [12q14.3/13q13.3]  [t(12;13)(q14;q13)]  
    Fusion : MitelmanTDRD3/LHFP [13q21.2/13q13.3]  [t(13;13)(q13;q21)]  
    Fusion : MitelmanUNC79/LHFP [14q32.12/13q13.3]  [t(13;14)(q13;q32)]  
    Fusion : COSMICHMGA2 [12q14.3]  -  LHFP [13q13.3]  [fusion_976]  [fusion_977]  
    Fusion: TCGACOG6 13q14.11 LHFP 13q13.3 BRCA
    Fusion: TCGAKIAA1409 LHFP 13q13.3 KIRC
    Fusion: TCGATDRD3 13q21.2 LHFP 13q13.3 BRCA
    Polymorphisms : SNP and Copy number variants
    NCBI Variation ViewerLHFP [hg38]
    dbSNP Single Nucleotide Polymorphism (NCBI)LHFP
    Exome Variant ServerLHFP
    ExAC (Exome Aggregation Consortium)ENSG00000183722
    GNOMAD BrowserENSG00000183722
    Genetic variants : HAPMAP10186
    Genomic Variants (DGV)LHFP [DGVbeta]
    DECIPHERLHFP [patients]   [syndromes]   [variants]   [genes]  
    CONAN: Copy Number AnalysisLHFP 
    ICGC Data PortalLHFP 
    TCGA Data PortalLHFP 
    Broad Tumor PortalLHFP
    OASIS PortalLHFP [ Somatic mutations - Copy number]
    Cancer Gene: CensusLHFP 
    Somatic Mutations in Cancer : COSMICLHFP  [overview]  [genome browser]  [tissue]  [distribution]  
    Mutations and Diseases : HGMDLHFP
    LOVD (Leiden Open Variation Database)Whole genome datasets
    LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
    BioMutasearch LHFP
    DgiDB (Drug Gene Interaction Database)LHFP
    DoCM (Curated mutations)LHFP (select the gene name)
    CIViC (Clinical Interpretations of Variants in Cancer)LHFP (select a term)
    NCG5 (London)LHFP
    Cancer3DLHFP(select the gene name)
    Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
    Genetic Testing Registry LHFP
    NextProtQ9Y693 [Medical]
    Target ValidationLHFP
    Huge Navigator LHFP [HugePedia]
    snp3D : Map Gene to Disease10186
    BioCentury BCIQLHFP
    Clinical trials, drugs, therapy
    Chemical/Protein Interactions : CTD10186
    Chemical/Pharm GKB GenePA30358
    Clinical trialLHFP
    canSAR (ICR)LHFP (select the gene name)
    PubMed10 Pubmed reference(s) in Entrez
    GeneRIFsGene References Into Functions (Entrez)
    REVIEW articlesautomatic search in PubMed
    Last year publicationsautomatic search in PubMed

    Search in all EBI   NCBI

    © Atlas of Genetics and Cytogenetics in Oncology and Haematology
    indexed on : Thu Oct 12 16:25:55 CEST 2017

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